Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 11 | 10 | 9 | 17.38 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| IBIKFAKM_35 | 99474 | 99791 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| IBIKFAKM_35 | 99136 | 99474 | ykkC | ARO:3003063 | ykkC | 99.11 | 100.00 | AL009126.1 |
| IBIKFAKM_46 | 48046 | 49485 | lmrB | ARO:3002813 | lmrB | 98.74 | 100.42 | JYFL01000006.1 |
| IBIKFAKM_33 | 36410 | 38041 | vmlR | ARO:3004476 | vmlR | 98.34 | 99.27 | NC_000964.3 |
| IBIKFAKM_38 | 9250 | 10419 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| IBIKFAKM_37 | 6823 | 8025 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| IBIKFAKM_68 | 6185 | 8755 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
| IBIKFAKM_46 | 1148 | 1741 | tmrB | ARO:3003059 | tmrB | 97.46 | 100.00 | AL009126.3 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| IBIKFAKM_14 | 76638 | 78014 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 98.47 | 100.00 | D12567 |
| IBIKFAKM_29 | 7167 | 8086 | mph(K) | Spiramycin, Telithromycin | 97.72 | 99.89 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| IBIKFAKM_14 | 76641 | 78014 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 98.47 | 100.00 | WP_063856081.1 |
| IBIKFAKM_33 | 36398 | 38041 | vmlR | ABC-F type ribosomal protection protein VmlR | INTERNAL_STOP | 97.45 | 100.00 | WP_003234144.1 |
| IBIKFAKM_14 | 74118 | 74636 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 91.91 | 100.00 | WP_003242546.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| IBIKFAKM_41 | 30047 | 31228 | capB | 0.0 | Capsule | Immune modulation | 99.49 | 100.00 | NP_391471 |
| IBIKFAKM_22 | 34259 | 35044 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| IBIKFAKM_41 | 28422 | 29564 | capA | 0.0 | Capsule | Immune modulation | 99.21 | 100.00 | NP_391469 |
| IBIKFAKM_84 | 7179 | 8942 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| IBIKFAKM_41 | 29583 | 30032 | capC | 0.0 | Capsule | Immune modulation | 99.11 | 100.00 | NP_391470 |
| IBIKFAKM_22 | 33037 | 34233 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.08 | 100.00 | NP_391079 |
| IBIKFAKM_22 | 23267 | 30403 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.05 | 100.00 | NP_391076 |
| IBIKFAKM_22 | 30423 | 31361 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.98 | 100.00 | NP_391077 |
| IBIKFAKM_22 | 31389 | 33008 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.84 | 100.00 | NP_391078 |
| IBIKFAKM_43 | 23790 | 24431 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 97.82 | 100.00 | NP_390062 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| IBIKFAKM_30 | 28114 | 26978 | tufA | 0.0 | elongation factor Tu | 85.75 | 95.69 | AHM69299 |
| IBIKFAKM_88 | 4285 | 5154 | pdxS | 1.94e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.45 | 98.31 | ACE61268 |
| IBIKFAKM_7 | 107287 | 106511 | CodY | 5.28e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| IBIKFAKM_2 | 9560 | 8991 | ClpP | 2.64e-100 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| IBIKFAKM_58 | 24422 | 24814 | spxA1 | 4.16e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| IBIKFAKM_58 | 24422 | 24814 | spx | 2.48e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| IBIKFAKM_39 | 34594 | 34352 | SpoVG | 7.48e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| IBIKFAKM_92 | 935 | 738 | CspA | 2.00e-33 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| IBIKFAKM_43 | 12561 | 12367 | CspD | 3.50e-29 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| IBIKFAKM_5 | 30141 | 29947 | CspB | 4.36e-28 | cold shock protein | 83.08 | 98.48 | CAD00094 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| IBIKFAKM_52 | 5333 | 5497 | Col(SD853) | 165 / 194 | 86.06 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| IBIKFAKM_1 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_2 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_3 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_4 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_5 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_6 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_7 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_8 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_9 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_10 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_11 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_12 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_13 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_14 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_15 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_16 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_17 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_18 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_19 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_20 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_21 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_22 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_23 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_24 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_25 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_26 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_27 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_28 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_29 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_30 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_31 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_32 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_33 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_34 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_35 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_36 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_37 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_38 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_39 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_40 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_41 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_42 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_43 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_44 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_45 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_46 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_47 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_48 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_49 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_50 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_51 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_52 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_53 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_54 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_55 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_56 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_57 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_58 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_59 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_60 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_61 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_62 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_63 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_64 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_65 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_67 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_68 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_69 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_70 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_71 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_72 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_73 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_75 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_76 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_77 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_78 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_79 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_80 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_81 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_82 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_83 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_84 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_85 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_86 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_87 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_88 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_89 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_90 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_91 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_92 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_93 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_94 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_96 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_97 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_98 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_102 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_103 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_104 | 1.0 | 0.0 | 1.0 |
| IBIKFAKM_105 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_109 | 0.0 | 1.0 | 0.0 |
| IBIKFAKM_110 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| IBIKFAKM_3 | 33630 | 58781 | False | Siphoviridae | VOG11060, VOG9600, VOG0025, VOG1884, VOG0198, VOG9029, VOG4841, VOG0713, VOG4581, VOG1886, VOG3607, VOG4556, VOG4568, VOG4553, VOG10223, VOG0204, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG0801, VOG4772, VOG4660, VOG4358, VOG4612, VOG6243 |
| IBIKFAKM_4 | 80929 | 115458 | False | Siphoviridae | VOG4552, VOG4603, VOG1720, VOG4600, VOG1309, VOG0189, VOG0536, VOG1336, VOG0245, VOG5836, VOG0397, VOG0102, VOG0044, VOG0198, VOG0275, VOG7884, VOG0713, VOG4841, VOG4581, VOG1886, VOG0202, VOG4556, VOG4573, VOG4553, VOG5361, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG5910, VOG6163, VOG0801, VOG4619, VOG4626, VOG4612, VOG6243, VOG4705, VOG5221, VOG0136 |
| IBIKFAKM_13 | 5486 | 13617 | False | Siphoviridae | VOG4692, VOG4551, VOG0025, VOG7627, VOG0322, VOG6464, VOG1837 |
| IBIKFAKM_35 | 43278 | 69617 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG5384, VOG4705 |
| IBIKFAKM_40 | 2 | 29215 | False | Siphoviridae | VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3644, VOG4544, VOG4581, VOG4841, VOG0198, VOG4548, VOG0327, VOG4609, VOG0026, VOG1565, VOG0021, VOG1047, VOG7438 |
Phigaro v2.4.0 (Database: Jan. 2024 release)